Status
[June 2020] The Phleogena faginea OMC 1709 v1.0 genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.
Summary statistics for the Phleogena faginea OMC 1709 v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 61.42 |
| Sequencing read coverage depth | 119.6x |
| # of contigs | 344 |
| # of scaffolds | 344 |
| # of scaffolds >= 2Kbp | 344 |
| Scaffold N50 | 25 |
| Scaffold L50 (Mbp) | 0.89 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 1.87, 1.85, 1.69 |
Note: RNA data suffers from bacterial contamination. A small percentage of reads are contributing to the creation of unmapped contigs.
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 74079 | 41657 | 56.2% |
| Ests | est.fasta | 159983994 | 148733507 | 93.0% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 2264 | 1923 |
| transcript | 1708 | 1443 |
| exon | 280 | 150 |
| intron | 111 | 75 |
| description: | ||
| protein length (aa) | 502 | 405 |
| exons per gene | 6.11 | 5 |
| # of gene models | 13022 |
Collaborators
- Otto Miettinen, University of Helsinki, Finland
- Francis Martin, INRA Nancy, France
Links
- 1000 Fungal Genomes Project
- JGI PhyloGroup Portals: Fungi Dikarya Basidiomycota Pucciniomycotina
Funding
The work conducted by the U.S. Department of Energy Joint Genome
Institute, a DOE Office of Science User Facility, is supported by
the Office of Science of the U.S. Department of Energy under
Contract No. DE-AC02-05CH11231.
